# STOCKHOLM 1.0
#=GF CC Generated by LocARNA 1.9.1
#=GF SQ 4

DroMel_CAF1        GGUGCUAUAACUUUUAAAUAGCUAGUCUUAUACUCCCGAAAGUAUUACGAAA----AU----------GUGAAGAUCCACCUAAAUAUUUACCAGAAAAUGAUCUCCAUUUAAGCCGAUU
DroYak_CAF1        AGGACUUUAACUUUCAGAUAGCCAGUCUUAUACUUCCGAGAAUAUUGAGAU-----AU----------GGGAAGAUCCACCUGAAUACUCACCAGAUAAGGAUCUCCACCCAAGCCGCAU
DroSec_CAF1        GGUGCUAUAACUUUUAGAUAGCUAGUCUU------UCGAAAGUAUUUCGAAA----AU----------UUGAAGAUACACCUGAAUACUCACCGGAAAUG----------------AU--
DroPer_CAF1        GGCGC--UA--------AUGGCGUGAUUUUUCGUCUGCUUACGC-AAAAUUGAUCCCUCGCAUGAUUUUAGAAGUUC--CCUAAUGACUCACCGCCAAAGACAGAGUUUCAAUCCCGAUU
#=GC SS_cons       ..((((((.........)))))).((((((((((......)))).)))))).................(((..((((((((((.....(((.((((........................

DroMel_CAF1        CACUUUACCAAACUGGAAAAUUCUCCGAUGAAUGCUAAACACAUUUCUCACACACCUGAAAUUUUGCUCAACCGG-AUCGUUGGCCAUAAUGGCAGCGGUUCAGCAAGAUACAGGCGCGA
DroYak_CAF1        UGCUUUACCAACUUUGCAAAUCCUCCGAUGAAUGCUAAACAAAUUUCUCACACACCUGAAAUUUUGCUCAACCGG-AUCGAAGACCAUAAUUGUAACGGUUCAGCAAGAUACAGGCGCGA
DroSec_CAF1        C-----ACCAGUCUGAUAAAUCCUCCGAUGAAUGCUAAACACAUUUCUCACACACCUGAAAUUUUGCUCAACCGG-AUCGUUGGCCAUGAUGGCAGCGGUUCAGCAAGAUACAGGCGCGA
DroPer_CAF1        CCG---ACUG--CUGA----UGGAGUGAAGAUUGCUUAACAAAUUUCUCACACACCUGAAAUUUUGCUCAACCGGGAUGAAAGACCAUUAUGGCUACGGUUCAGCAAGAUACAGGCGCGA
#=GC SS_cons       .......................)))).)))........((((((((.......((((..((((((((.(((((.........((((...))))..))))).)))))))).)))).....

DroMel_CAF1        AUGAAAUGUGUUGCCAAAGGACUUUGGUGUCAACGAGGAC-----GAAAUGAAUCACCAUGUA--------CCACCACUGAAUC-AGCACUUG
DroYak_CAF1        AUGAAAUAUGCCGCCAAAGGACUU-GGACACAACCAGGAC------AAAUGAAUCACCAAGUAGAUAUGA-CUAGCACUGGAAC-UGCGUG-U
DroSec_CAF1        AUGAAAUGUGCCGCCAAAGGACUUGGUUGUCAGCCAGGAC-----GAAAUGAAUCACCAUUUAAGUAGCAAGUAACACUGAAUC-AACACUUG
DroPer_CAF1        AUGAAAUAUGCCAGCACACGG-UAGGAUGUCAA---GGAAAAUCUCUAAGCACCAGAGCUUGAA-------GGGACACUUGGAUAUGGAAG-U
#=GC SS_cons       ..)))))))).........(((......)))...))))........(((((......)))))................))))))...)))...
//